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Author SHA1 Message Date
Ricardo Wurmus
b06cdce923
gnu: Add r-velocyto. 
* gnu/packages/bioinformatics.scm (r-velocyto): New variable.
 2019-10-14 18:22:46 +02:00
Ricardo Wurmus
40be965e28
gnu: Add r-phastcons100way-ucsc-hg19. 
* gnu/packages/bioconductor.scm (r-phastcons100way-ucsc-hg19): New variable.
 2019-10-14 18:09:37 +02:00
Pierre Neidhardt
14db074e28
gnu: Add emacs-sly-package-inferred. 
* gnu/packages/emacs-xyz.scm (emacs-sly-package-inferred): New variable.
 2019-10-14 18:00:33 +02:00
Pierre Neidhardt
de36efc2e0
gnu: Add emacs-sly-macrostep. 
* gnu/packages/emacs-xyz.scm (emacs-sly-macrostep): New variable.
 2019-10-14 18:00:32 +02:00
Pierre Neidhardt
b0cf64c0bc
gnu: Add emacs-sly-named-readtables. 
* gnu/packages/emacs-xyz.scm (emacs-sly-named-readtables): New variable.
 2019-10-14 18:00:32 +02:00
Pierre Neidhardt
6078c0043d
gnu: emacs-sly-asdf: Update to 20191013. 
* gnu/packages/emacs-xyz.scm (emacs-sly-asdf): Update to 20191013.
 2019-10-14 18:00:32 +02:00
Stephen Webber
534610d820
gnu: Add emacs-dimmer. 
* gnu/packages/emacs-xyz.scm (emacs-dimmer): New variable.
 2019-10-14 17:19:54 +02:00
Tobias Geerinckx-Rice
8c26b18453
gnu: sudo: Update to 1.8.28 [fixes CVE-2019-14287]. 
* gnu/packages/admin.scm (sudo): Update to 1.8.28.
 2019-10-14 17:14:46 +02:00
Tobias Geerinckx-Rice
41cc799357
gnu: r-fields: Use HTTPS home-page. 
* gnu/packages/cran.scm (r-fields)[home-page]: Use HTTPS.
 2019-10-14 17:14:45 +02:00
Tobias Geerinckx-Rice
e96a56f62d
gnu: r-fields: Update to 9.9. 
* gnu/packages/cran.scm (r-fields): Update to 9.9.
 2019-10-14 17:14:45 +02:00
Tobias Geerinckx-Rice
f64cd5d1ac
gnu: sqitch: Update to 1.0.0. 
* gnu/packages/databases.scm (sqitch): Update to 1.0.0.
 2019-10-14 17:14:45 +02:00
Tobias Geerinckx-Rice
8fc3a337ab
gnu: network-manager-applet: Update to 1.8.24. 
* gnu/packages/gnome.scm (network-manager-applet): Update to 1.8.24.
 2019-10-14 17:14:45 +02:00
Tobias Geerinckx-Rice
b55e328941
gnu: poedit: Update to 2.2.4. 
* gnu/packages/poedit.scm (poedit): Update to 2.2.4.
 2019-10-14 17:14:45 +02:00
Tobias Geerinckx-Rice
7f07dd7f0e
gnu: perl-cache-fastmmap: Update to 1.48. 
* gnu/packages/perl.scm (perl-cache-fastmmap): Update to 1.48.
 2019-10-14 17:14:45 +02:00
Mathieu Othacehe
396b05f04e
gexp: Use cross extensions when cross-compiling. 
* guix/gexp.scm (load-path-expression): Use ungexp-splicing instead of
ungexp-native-splicing so that the cross extensions are used when target is
set.
 2019-10-14 09:59:04 +02:00
Brian Leung
92f92a0fc8
gnu: emacs-unpackaged-el: Update to 0-3.746801a. 
* gnu/packages/emacs-xyz.scm (emacs-unpackaged-el): Update to 0-3.746801a.
 2019-10-14 00:30:29 -07:00
Brian Leung
34d2367dc1
gnu: emacs-ivy-rich: Update to 0.1.4-2.7a667b1. 
* gnu/packages/emacs-xyz.scm (emacs-ivy-rich): Update to 0.1.4-2.7a667b1.
 2019-10-14 00:30:24 -07:00
Eric Bavier
bd04fe8786
gnu: HandBrake: Update to 1.2.2. 
* gnu/packages/video.scm (handbrake): Update to 1.2.2.
 2019-10-13 22:54:12 -05:00
Eric Bavier
136e3b392b
gnu: stress-make: Fix build and update. 
* gnu/packages/debug.scm (stress-make)[version]: Update to latest upstream
commit.  Bump revision.  Use 'git-version'.
[source]: Update url.  Use 'git-file-name'.
[home-page]: Update url likewise.
[arguments]: Add 'setup-go' phase.
[license]: Update license file name.
 2019-10-13 22:17:38 -05:00
Tobias Geerinckx-Rice
217f22d16a
gnu: xwd: Fix typo in description. 
* gnu/packages/xorg.scm (xwd)[description]: Fix typo.
 2019-10-14 00:40:30 +02:00
Tobias Geerinckx-Rice
509551c2a8
gnu: xwininfo: Update to 1.1.5. 
* gnu/packages/xorg.scm (xwininfo): Update to 1.1.5.
 2019-10-14 00:32:32 +02:00
Tobias Geerinckx-Rice
9cdf9468dd
gnu: emacs-nhexl-mode: Use HTTPS home page. 
* gnu/packages/emacs-xyz.scm (emacs-nhexl-mode)[home-page]: Use HTTPS.
 2019-10-14 00:32:32 +02:00
Tobias Geerinckx-Rice
d915065bac
gnu: emacs-nhexl-mode: Update to 1.3. 
* gnu/packages/emacs-xyz.scm (emacs-nhexl-mode): Update to 1.3.
 2019-10-14 00:32:32 +02:00
Tobias Geerinckx-Rice
fc319fde1a
gnu: emacs-darkroom: Update to 0.2. 
* gnu/packages/emacs-xyz.scm (emacs-darkroom): Update to 0.2.
 2019-10-14 00:32:32 +02:00
Tobias Geerinckx-Rice
d3dfeaa8fe
gnu: emacs-let-alist: Update to 1.0.6. 
* gnu/packages/emacs-xyz.scm (emacs-let-alist): Update to 1.0.6.
 2019-10-14 00:32:32 +02:00
Tobias Geerinckx-Rice
d0b9fc9a89
gnu: emacs-csv-mode: Use HTTPS. 
* gnu/packages/emacs-xyz.scm (emacs-csv-mode)[source, home-page]: Use HTTPS.
 2019-10-14 00:32:31 +02:00
Tobias Geerinckx-Rice
80fd379784
gnu: emacs-csv-mode: Update to 1.9. 
* gnu/packages/emacs-xyz.scm (emacs-csv-mode): Update to 1.9.
 2019-10-14 00:32:31 +02:00
Tobias Geerinckx-Rice
5aa5187128
gnu: emacs-load-relative: Update to 1.3.1. 
* gnu/packages/emacs-xyz.scm (emacs-load-relative): Update to 1.3.1.
 2019-10-14 00:32:31 +02:00
Tobias Geerinckx-Rice
ca49db2735
gnu: emacs-debbugs: Update to 0.20. 
* gnu/packages/emacs-xyz.scm (emacs-debbugs): Update to 0.20.
 2019-10-14 00:32:31 +02:00
Tobias Geerinckx-Rice
a201b0973e
gnu: starman: Update to 0.4015. 
* gnu/packages/web.scm (starman): Update to 0.4015.
 2019-10-14 00:32:31 +02:00
David Wilson
1c463524c8
gnu: Add playerctl. 
* gnu/packages/music.scm (playerctl): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-10-14 00:08:33 +02:00
Kyle Meyer
ff73bbf410
gnu: git-annex: Update to 7.20191009. 
* gnu/packages/haskell-apps.scm (git-annex): Update to 7.20191009.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-10-14 00:08:10 +02:00
Ludovic Courtès
efa8fddabe
gnu: commencement: Use 'package-with-explicit-inputs' for Hurd packages. 
* gnu/packages/commencement.scm (with-boot0): New procedure.
(gnumach-headers-boot0, mig-boot0)
(hurd-headers-boot0, hurd-minimal-boot0)
(hurd-core-headers-boot0): Use it instead of 'package-with-explicit-inputs'.
 2019-10-14 00:08:10 +02:00
Ludovic Courtès
8f417ed280
gnu: commencement: Further optimize the package object graph. 
For a package like:

  (define-public xxx
    (package
      (inherit (@ (gnu packages base) coreutils))
      (name "xxx")
      (inputs (@ (gnu packages commencement) %final-inputs))
      (native-inputs '())
      (propagated-inputs '())
      (arguments '(#:implicit-inputs? #f))))

this reduces the package object graph from 176 nodes (1852 edges) to 113
nodes (1114 edges).

The number of 'add-data-to-store' calls in "guix build coreutils -nd"
drops from 2045 to 1301, and the number of memoization tables drops from
102 to 40.

"guix build libreoffice -nd" goes from 2.40s to 2.27s.

* gnu/packages/commencement.scm (with-boot4): New variable.
(guile-final, glibc-utf8-locales-final): Use it.
(with-boot4, with-boot5): New variable.
(gnu-make-final): Rewrite to avoid 'package-with-explicit-inputs'.
(coreutils-final): Use 'with-boot5' instead of
'package-with-explicit-inputs'.
(grep-final): Likewise.
(with-boot6): New variable.
(sed-final, %final-inputs): Use it.
 2019-10-14 00:08:10 +02:00
Ludovic Courtès
f618134e4c
build-system/gnu: 'package-with-explicit-inputs' uses 'package-mapping'. 
* guix/build-system/gnu.scm (package-with-explicit-inputs): Rename to...
(package-with-explicit-inputs/deprecated): ... this.
(package-with-explicit-inputs*): New procedure.
(package-with-explicit-inputs): Define as a 'case-lambda*'.
 2019-10-14 00:08:10 +02:00
Marius Bakke
64855281c1
gnu: librsvg: Update to 2.46.0. 
* gnu/packages/gnome.scm (librsvg-next): Update to 2.46.0.
[arguments]: Patch SHELL in "po/Makefile.in.in".
[native-inputs]: Replace RUST-1.27 with RUST-1.34.
 2019-10-13 22:49:16 +02:00
Marius Bakke
e436379c94
gnu: expat: Replace with 2.2.9 [fixes CVE-2019-15903]. 
* gnu/packages/xml.scm (expat-2.2.9): New variable.
(expat)[replacement]: New field.
 2019-10-13 22:49:16 +02:00
Marius Bakke
24496210ea
gnu: libgcrypt: Replace with 1.8.5 [fixes CVE-2019-13627]. 
* gnu/packages/gnupg.scm (libgcrypt-1.8.5): New variable.
(libgcrypt)[replacement]: New field.
 2019-10-13 22:49:16 +02:00
Marius Bakke
046915dead
gnu: curl: Replace with 7.66.0 [fixes CVE-2019-5481, CVE-2019-5482]. 
* gnu/packages/curl.scm (curl-7.66.0): New variable.
(curl)[replacement]: New field.
 2019-10-13 22:49:16 +02:00
Marius Bakke
cb867883ea
gnu: nghttp2: Replace with 1.39.2 [fixes CVE-2019-9511, CVE-2019-9513]. 
* gnu/packages/web.scm (nghttp2-1.39.2): New variable.
(nghttp2)[replacement]: New field.
 2019-10-13 22:49:16 +02:00
Marius Bakke
d6718086f8
gnu: OpenSSL@1.0: Replace with 1.0.2t [fixes CVE-2019-1547, CVE-2019-1563]. 
* gnu/packages/tls.scm (openssl-1.0.2t): New variable.
(openssl-1.0)[replacement]: New field.
 2019-10-13 22:49:16 +02:00
Oleg Pykhalov
0475c88d6f
gnu: Add emacs-forge. 
* gnu/packages/emacs-xyz.scm (emacs-forge): New variable.
 2019-10-13 22:29:42 +03:00
Oleg Pykhalov
735a972eae
gnu: emacs-closql: Update to 1.0.0-1.70b98db. 
* gnu/packages/emacs-xyz.scm (emacs-closql): Update to 1.0.0-1.70b98db.
 2019-10-13 22:29:42 +03:00
Brian Leung
2485f17256
gnu: emacs-ghub: Update to 3.2.0-1.cf0b13a. 
* gnu/packages/emacs-xyz.scm (emacs-ghub): Update to 3.2.0-1.cf0b13a.

Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
 2019-10-13 22:29:42 +03:00
Oleg Pykhalov
fd82f7ae9b
gnu: emacs-magit: Update to 2.90.1-2.c761d28. 
* gnu/packages/emacs-xyz.scm (emacs-magit): Update to 2.90.1-2.c761d28.
[arguments]: Add patch phase.
 2019-10-13 22:29:41 +03:00
Marius Bakke
c2734ff809
gnu: ao: Update to 1.2.2-5-g20dc8ed [fixes CVE-2017-11548]. 
* gnu/packages/xiph.scm (ao): Update to 1.2.2-5-g20dc8ed.
[source]: Switch to GIT-FETCH.
[native-inputs]: Add AUTOCONF, AUTOMAKE and LIBTOOL.
 2019-10-13 18:35:59 +02:00
Marius Bakke
c7adcb7cf8
gnu: ao: Specify CPE name. 
* gnu/packages/xiph.scm (ao)[properties]: New field.
 2019-10-13 18:35:59 +02:00
Marius Bakke
068d0a1c34
gnu: tcl: Update home page. 
* gnu/packages/tcl.scm (tcl)[home-page]: Use HTTPS.
 2019-10-13 18:35:59 +02:00
Marius Bakke
a4a70cc4d7
gnu: util-linux: Adjust indentation. 
* gnu/packages/linux.scm (util-linux): Re-indent.
 2019-10-13 18:35:58 +02:00
Eric Bavier
0163b9002a
gnu: Add pragha. 
* gnu/packages/music.scm (pragha): New variable.
 2019-10-13 11:08:56 -05:00